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SeelViz - Javascript Visualizations of Clarity Brains

Albert Lee, Jon Liu, Tony Sun, Luke Zhu

Research made possible by NeuroData

SeelViz: Data Visualization of Clarity Brain Images

SeelViz (short for Clarity Visualization) is a collection of tools used to analyze and visualize CLARITY-treated brains. This website is maintained to provide deliverables (see here) of our weekly progress as well as extensive documentation regarding our projects. Upload CSV files here to perform processing on our web server (in alpha, please upload 200 kb or less).

Graph Explanations

Shown above is an example output of a density false-colored for Cocaine 174 generated via ClarityViz. The colorations correspond to the number of edges for each node (an edge-number-to-color mapping can be seen here. Each unique color represents a 5% increase in total number of nodes, with the most-connected node being the white node. The original source code can be seen here.    

Export to plot.ly »
trace 30x: 157y: 161z: 622
trace 0trace 1trace 2trace 3trace 4trace 5trace 6trace 7trace 8trace 9trace 10trace 11trace 12trace 13trace 14trace 15trace 16trace 17trace 18trace 19trace 20trace 21trace 22trace 23trace 24trace 25trace 26trace 27trace 28trace 29trace 30trace 31trace 32trace 33trace 34trace 35trace 36trace 37trace 38trace 39trace 40trace 41trace 42trace 43trace 44trace 45trace 46trace 47trace 48trace 49trace 50trace 51trace 52trace 53trace 54trace 55trace 56trace 57trace 58trace 59trace 60trace 61trace 62trace 63trace 64trace 65trace 66trace 67trace 68trace 69trace 70trace 71trace 72trace 73trace 74trace 75trace 76trace 77trace 78trace 79trace 80trace 81trace 82trace 83trace 84trace 85trace 86trace 87trace 88trace 89trace 90trace 91trace 92trace 93trace 94trace 95trace 96trace 97trace 98trace 99trace 100trace 101trace 102trace 103trace 104trace 105trace 106trace 107trace 108trace 109trace 110trace 111trace 112trace 113trace 114trace 115trace 116trace 117trace 118trace 119trace 120trace 121trace 122trace 123trace 124trace 125trace 126trace 127trace 128trace 129trace 130trace 131trace 132trace 133trace 134trace 135trace 136trace 137trace 138trace 139trace 140trace 141trace 142trace 143trace 144trace 145trace 146trace 147trace 148trace 149trace 150trace 151trace 152trace 153trace 154trace 155trace 156trace 157trace 158trace 159trace 160trace 161trace 162trace 163trace 164trace 165trace 166trace 167trace 168trace 169trace 170trace 171trace 172trace 173trace 174trace 175trace 176trace 177trace 178trace 179trace 180trace 181trace 182trace 183trace 184trace 185trace 186trace 187trace 188trace 189trace 190trace 191trace 192trace 193trace 194trace 195trace 196trace 197trace 198trace 199trace 200trace 201trace 202trace 203trace 204trace 205trace 206trace 207trace 208trace 209trace 210trace 211trace 212trace 213trace 214trace 215trace 216trace 217trace 218trace 219trace 220trace 221trace 222trace 223trace 224trace 225trace 226trace 227trace 228trace 229trace 230trace 231trace 232trace 233trace 234trace 235trace 236trace 237trace 238trace 239trace 240trace 241trace 242trace 243trace 244trace 245trace 246trace 247trace 248trace 249trace 250trace 251trace 252trace 253trace 254trace 255trace 256trace 257trace 258trace 259trace 260trace 261trace 262trace 263trace 264trace 265trace 266trace 267trace 268trace 269trace 270trace 271trace 272trace 273trace 274trace 275trace 276trace 277trace 278trace 279trace 280trace 281trace 282trace 283trace 284trace 285trace 286trace 287trace 288trace 289trace 290trace 291trace 292trace 293trace 294trace 295trace 296trace 297trace 298trace 299trace 300trace 301trace 302trace 303trace 304trace 305trace 306trace 307trace 308trace 309trace 310trace 311trace 312trace 313trace 314trace 315trace 316trace 317trace 318trace 319trace 320trace 321trace 322trace 323trace 324trace 325trace 326trace 327trace 328trace 329trace 330trace 331trace 332trace 333trace 334trace 335trace 336trace 337trace 338trace 339trace 340trace 341trace 342trace 343trace 344trace 345trace 346trace 347trace 348trace 349trace 350trace 351trace 352trace 353trace 354trace 355trace 356trace 357trace 358trace 359trace 360trace 361trace 362trace 363trace 364trace 365trace 366trace 367trace 368trace 369trace 370trace 371trace 372trace 373trace 374trace 375trace 376trace 377trace 378trace 379trace 380trace 381trace 382trace 383trace 384trace 385trace 386trace 387trace 388trace 389trace 390trace 391trace 392trace 393trace 394trace 395

    Shown above is an example output of the Control258 brain with each region as designated by the atlas a unique colored. Controls along the side allow for toggling the traces on/off. See here for implementation details.

    Shown above is an example output of the Control258 brain with each edge highlighted in cyan. The edges were determined by an epsilon ball radius of 25. See here for implementation details.

About Us

Albert Lee           Jon Liu           Tony Sun         Luke Zhu

Albert Jon Tony Luke

 

Acknowledgements

JHU BME neurodata.io deisseroth lab